genome.fa.s9.2.7.7.80.10.50.1000.131.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   

This is table  131  of  284  ( 34012 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43770312--43770517	40	5.2	40	79	2	227	26	27	22	23	2.00
43778475--43778680	40	5.2	40	79	2	227	27	27	21	23	1.99
43795553--43795619	26	2.6	26	85	0	80	26	25	25	22	2.00
43800428--43800469	12	3.5	12	83	0	57	23	30	28	16	1.96
43803341--43803688	96	3.7	96	76	9	277	35	14	24	25	1.94
43813172--43813349	27	6.6	27	80	3	160	30	28	14	26	1.95
43813172--43813349	54	3.3	55	80	3	182	30	28	14	26	1.95
43816475--43816580	38	2.8	38	84	2	97	37	26	17	17	1.93
43816495--43816621	38	3.3	38	83	0	146	37	29	15	17	1.91
43819354--43819456	42	2.3	47	82	11	128	33	22	14	29	1.94
43820607--43820673	27	2.6	27	74	9	68	28	20	17	32	1.96
43823466--43823958	45	11.0	45	89	0	695	29	27	18	24	1.98
43829035--43829188	43	3.7	41	82	9	170	30	24	16	28	1.97
43832092--43832262	43	4.0	43	79	4	177	31	27	15	25	1.96
43843025--43843247	40	5.6	40	82	10	237	25	27	21	25	2.00
43843025--43843248	79	2.8	80	86	7	289	25	27	21	25	2.00
43844327--43844351	13	1.9	13	100	0	50	4	8	0	88	0.64
43845005--43845942	40	23.5	40	84	7	1196	27	26	21	23	1.99
43845005--43845942	120	7.8	120	95	2	1667	27	26	21	23	1.99
43855285--43855462	27	6.6	27	83	3	205	26	15	28	29	1.96
43855286--43855441	82	1.9	81	88	3	233	26	15	28	29	1.96
43855282--43855462	82	2.2	81	83	2	229	27	15	27	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43861256--43861432	40	4.4	40	89	4	252	25	28	22	23	1.99
43869330--43869399	27	2.6	27	95	2	113	31	28	12	27	1.93
43869330--43869427	28	3.5	28	90	2	135	31	28	13	26	1.94
43877688--43877841	79	1.9	79	90	2	247	40	6	24	29	1.80
43878324--43878384	30	2.0	30	83	0	77	39	8	22	29	1.83
43881456--43881516	30	2.0	30	83	0	77	31	22	8	37	1.84
43882347--43882573	50	4.5	50	90	0	319	35	14	22	27	1.93
43882544--43882665	31	3.9	31	92	0	199	27	17	28	27	1.97
43882887--43882912	10	2.6	10	100	0	52	30	11	23	34	1.90
43893633--43893819	92	2.0	92	95	0	338	31	27	13	27	1.94
43894263--43894316	23	2.3	23	87	3	72	38	3	11	46	1.57
43894280--43894325	23	2.0	23	100	0	92	30	4	8	56	1.49
43894324--43894405	41	2.0	41	90	0	128	30	7	12	50	1.67
43901953--43902141	46	4.1	46	98	0	360	25	29	24	20	1.99
43902114--43902991	47	18.7	47	99	0	1747	27	27	19	25	1.99
43903409--43903468	30	2.0	30	87	6	86	31	25	6	36	1.82
43904213--43904351	70	2.0	70	94	2	244	31	17	12	38	1.87
43911701--43911741	19	2.2	19	100	0	82	36	4	14	43	1.67
43911778--43911859	41	2.0	41	95	0	146	30	7	14	47	1.71
43925507--43925729	40	5.6	40	85	3	236	26	27	21	24	1.99
43925661--43925738	40	1.9	41	82	10	97	26	28	21	23	1.99
43933418--43933640	40	5.6	39	85	3	241	26	27	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43933418--43933640	120	1.9	119	81	6	272	26	27	20	24	1.99
43938273--43938419	43	3.5	42	76	9	138	27	16	25	29	1.97
43940621--43940664	21	2.1	21	91	0	70	29	38	2	29	1.69
43949556--43949733	48	3.7	48	96	0	320	32	29	6	31	1.83
43953149--43953340	40	4.8	40	93	0	321	26	30	21	20	1.98
43953599--43953717	40	3.0	40	91	0	184	26	31	21	20	1.98
43963010--43963234	40	5.7	40	85	6	289	24	22	28	25	2.00
43963010--43963267	119	2.2	119	82	8	294	25	21	27	25	1.99
43966361--43966554	99	2.0	99	88	0	289	33	16	20	29	1.94
43966736--43966934	97	2.1	97	96	0	364	24	16	26	33	1.96
43967350--43967713	182	2.0	182	100	0	728	32	19	19	28	1.96
43969783--43969913	59	2.3	58	94	4	237	42	23	16	17	1.88
43969931--43970064	67	2.0	67	98	0	259	38	11	29	20	1.89
43970820--43970873	23	2.3	23	90	0	90	20	20	18	40	1.91
43972973--43973003	15	2.1	15	93	0	53	35	16	0	48	1.46
43974841--43974867	11	2.5	11	100	0	54	22	7	18	51	1.70
43975978--43976112	15	8.9	15	67	24	70	42	2	3	51	1.32
43976080--43976121	15	2.7	16	82	14	52	45	0	2	52	1.13
43976071--43976365	151	1.9	155	94	4	526	47	5	3	44	1.41
43976218--43976252	18	2.0	17	88	5	52	45	0	0	54	0.99
43976485--43976523	16	2.4	16	86	0	51	28	33	2	35	1.71
43976498--43976554	16	3.6	16	95	0	87	33	36	0	29	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43995265--43995344	23	3.5	21	80	14	79	20	18	22	38	1.93
43996247--43996278	16	2.0	16	93	0	55	50	34	6	9	1.60
43997552--43997586	8	4.4	8	85	0	52	51	20	22	5	1.68
43997810--43997911	29	3.6	29	87	1	143	25	16	30	27	1.97
43997810--43997920	57	1.9	58	88	1	170	26	16	30	27	1.96
44000840--44001101	39	6.7	40	87	7	337	25	22	27	24	2.00
44029523--44029623	52	2.0	50	84	3	130	38	11	13	35	1.82
44032889--44033160	27	10.1	27	80	10	263	23	16	19	41	1.90
44043494--44043551	30	1.9	30	85	0	80	34	12	24	29	1.91
44043894--44044062	46	3.6	46	82	7	182	27	18	28	24	1.98
44043978--44044093	44	2.5	47	83	8	132	25	17	32	24	1.96
44044937--44045068	55	2.5	53	87	6	178	21	19	30	28	1.98
44050507--44050557	27	1.9	26	84	4	66	60	1	0	37	1.08
44050563--44050623	32	1.9	32	86	6	88	57	3	0	39	1.15
44050506--44050700	10	20.6	9	69	17	76	61	3	0	34	1.18
44050506--44050700	19	10.3	18	66	19	76	61	3	0	34	1.18
44050610--44050668	27	2.2	27	88	11	86	67	3	1	27	1.16
44050597--44050658	8	7.0	8	77	15	52	67	1	0	30	1.00
44050566--44050701	67	2.0	67	81	9	161	61	4	0	33	1.21
44051235--44051313	9	8.8	8	74	19	50	34	1	2	62	1.17
44051414--44051449	19	1.9	19	94	5	65	30	0	2	66	1.06
44051232--44051447	10	23.1	9	67	22	56	37	0	5	56	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44054250--44054277	13	2.2	13	100	0	56	25	14	0	60	1.34
44057271--44057311	21	2.0	21	90	0	64	29	21	29	19	1.98
44062943--44063032	6	14.7	6	71	17	69	48	15	16	18	1.81
44062954--44063061	31	3.5	31	87	2	137	50	13	14	20	1.77
44062982--44063039	12	4.8	12	75	12	55	50	17	13	18	1.79
44063574--44063690	27	4.3	27	76	8	121	24	19	17	37	1.94
44063575--44063690	54	2.1	54	80	3	135	25	19	17	37	1.93
44063793--44064127	27	12.4	27	82	1	366	31	8	19	40	1.82
44064089--44064148	26	2.3	27	82	8	70	28	8	23	40	1.83
44074645--44074785	27	5.3	27	83	4	151	34	21	24	18	1.96
44074888--44074961	28	2.8	26	85	4	85	32	9	21	36	1.86
44076403--44076512	26	4.2	26	97	0	184	36	24	5	33	1.79
44078217--44078274	22	2.6	22	97	0	107	53	6	5	34	1.50
44078484--44078522	19	2.1	19	90	4	62	38	0	5	56	1.22
44079620--44079746	64	2.0	63	87	3	175	18	31	17	31	1.94
44082331--44082376	17	2.7	18	76	10	51	39	4	21	34	1.73
44085786--44085824	16	2.5	15	87	4	51	28	5	0	66	1.12
44085785--44085824	15	2.5	16	84	8	55	27	7	0	65	1.20
44087755--44087957	54	3.7	55	84	1	250	21	25	17	35	1.95
44103265--44103397	48	2.8	48	80	4	160	27	21	22	27	1.99
44108844--44108876	16	2.1	16	88	5	50	60	6	3	30	1.36
44111492--44111631	70	2.0	70	98	0	271	36	8	17	37	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44113710--44113893	40	4.7	40	81	8	200	25	21	26	26	2.00
44113762--44113926	79	2.1	79	81	8	185	26	20	27	25	1.99
44118323--44118352	16	1.9	15	93	6	51	56	20	20	3	1.56
44118601--44118665	28	2.3	28	94	0	112	33	27	7	30	1.85
44118771--44118852	28	3.0	27	85	7	112	20	25	21	31	1.98
44118771--44118885	55	2.1	56	80	8	128	20	24	20	34	1.96
44122138--44122169	15	2.0	17	88	11	50	43	31	0	25	1.55
44126801--44126834	11	2.9	12	86	8	52	70	11	0	17	1.16
44133423--44133456	16	2.0	17	88	11	52	47	5	5	41	1.52
44135387--44135447	25	2.4	25	73	10	61	32	19	22	24	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284